BioVoxxel (Jan Brocher)

@biovoxxel.de

999 Followers 1109 Following

BioImage Analyst, Consulting, Customized Analysis Programming Founder, PhD in biology, Fiji/ImageJ, Inkscape, Java 🧪🔬💻 🇩🇪 🇬🇧 🇪🇦 Homepage: biovoxxel.de All relevant BioVoxxel Links: linktr.ee/biovoxxel LinkedIn Newsletter: http://bit.ly/46mYBL7

Basic Microscopic Image Processing and Analysis
Basic Microscopic Image Processing and Analysis
The new Biovoxxel channels tool is shown with arrows pointing out the newly added colors. Right of it an image with 3 fluorescent channels is shown displaying a certain combination of some of those colors
Cover image for the Scientific Illustration online workshop. It shows a schematic synapse in overview with a zoomed in view displayed in a circular outline containing molecular structures included fom the PDB protein data base
initial slide for the presentation about scientific figure making using Fiji (an imageJ bundle) and Inkscape
Workshops offered by biovoxxel: 1. Scientific Image Editing and Figure Creation 2. Basic Microscopic Image Processing and Analysis 3. Image Analysis Automation with ImageJ Macro Scripting 4. From Pixels to Patterns: Applying Machine Learning Tools for Advanced Image Analysis 5. Scientific Illustration
A screenshot showing the use of the Windows ColourSimulatons app to quickly check color blind friendly display and color usage in images. It shows one image of fluorescently stained cells while combining red, green and blue colors and another one using cyan, yellow and magenta together with the apps sliding window that simulates the color blind vision on screen. Additionally it displays the pop-up menu for the tool.
Flyer on scientific illustration course describing individual topics and features, which can also be found in text under https://www.biovoxxel.de/workshops/scientific-illustration/
color inspector UI
In Fiji/ImageJ the shortcut ([Ctrl] +) [Shift] + [U] brings up the normally hidden Plugins › Utilities › Control Panel (by Cezar Tigaret) This gives quick access to the complete Fiji menu and specific panes you use often can be detached by simple dragging
Scientific Image Editing & Figure Creation Workshop content: -Proper editing of scientific images for publications and good scientific image handling practice -Understanding all aspects of digital images (e.g. file formats, metadata, bit depth, histogram,…) -Proper merging of fluorescent channels and use of pseudo-colors and calibration bars -Proper application of 2D projections from 3D data -Optional: short glance on 3D reconstruction options in Fiji/ImageJ -Scaling images to units (e.g. µm) via metadata and adding scale bars -Uneven lighting correction methods for visualization -Background correction methods -Proper contrast adjustment respecting good scientific practice limits -Avoiding data alterations when exporting images for publication figures -Introduction to the vector graphic software Inkscape for efficient publication figure creation -Creating example figures